Array 1 5327-6452 **** Predicted by CRISPRDetect 2.4 *** >NZ_LXIQ01000012.1 Salmonella enterica subsp. enterica serovar Nottingham strain 3738 H CFSAN006803_contig0011, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 5327 29 100.0 32 ............................. TTTTCCCAGCTCCGGCGCCAGCGGTGCCAGTC 5388 29 100.0 32 ............................. TTTAATTACCGGACGGTCGAACATAAGGAAGT 5449 29 100.0 32 ............................. CTGCCGGATCATCAAGGTTTGCGGGATTAATG 5510 29 100.0 32 ............................. CCGTTCTCGTCGATAGTGTGTTCCGCTTTGGC 5571 29 100.0 32 ............................. GAACGCAACGATATAGAGTTAGTTGTCGTTGG 5632 29 100.0 32 ............................. TCCATCAATCACACGCTGGCGATCTTTCACTA 5693 29 100.0 32 ............................. TCATGCAGGGCGTGAGCATCAGGGCGACGAAC 5754 29 100.0 32 ............................. TCTGATATCGCTTCTTATGGACAAACGCGCGG 5815 29 100.0 32 ............................. CGCTGGTAGAGGCGCTGGAGAGGGCGCAGCAG 5876 29 100.0 32 ............................. CGGCTAAAAGTCGCGCTGGCAAGATGTCAGCG 5937 29 100.0 32 ............................. GAAGCGCCGCTGGGGCTGGTGGCGGCAGGGTT 5998 29 96.6 32 ............................T GGTCCAGTCCCGGTCCTCTACCGAACCAAAAC 6059 29 100.0 32 ............................. AGCCGTTCCCGTTGAATACGCCGGCGGTTATC 6120 29 100.0 32 ............................. GCGGATCAGATAGAAAAACTATTCCGACAGTT 6181 29 100.0 32 ............................. GTCAAGGTGTGTAATTGAGGCATCAAGTTCAG 6242 29 100.0 32 ............................. CCATTTGCTCGCCGTTCCGGCCGAGTTCTGAG 6303 29 100.0 32 ............................. GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 6364 29 96.6 32 ............T................ TACCAACAATTCAGCGTTACGCCAACGGTAAC 6425 28 86.2 0 ...............A.AA....-..... | ========== ====== ====== ====== ============================= ================================ ================== 19 29 98.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGCTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCGCGTAACTGGCGTTTGTCGATGCAAACACATAAATATTTAAATATTGCCTGATGCATTACTAATTTTACGGACGGCCTGCCGATGCCGTCTGTGAGTCATCCATTACCTCGCCTTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACACACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTAGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGCATCATCTGCCATCCCGATATTGCGCGTGAATGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-61.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 22577-24012 **** Predicted by CRISPRDetect 2.4 *** >NZ_LXIQ01000012.1 Salmonella enterica subsp. enterica serovar Nottingham strain 3738 H CFSAN006803_contig0011, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 22577 29 100.0 32 ............................. TGCGGAATTATTACCTATATCACAATCGGTGC 22638 29 100.0 32 ............................. GATATTTTGCGTATCGGTTTTAACGGTAAATC 22699 29 96.6 33 ............................T GGGAATAATTTCTCCCTGTCAACATTGGATACA 22761 29 100.0 32 ............................. CGCTGGAGTACATCGCAGGCGACAGGATTGAG 22822 29 100.0 32 ............................. AAACAATGGCAAACAGATCTTAAGGGGTGGTT 22883 29 100.0 32 ............................. CGTAGTCCAGCCGGTCGTAAGTCCTGTCCTTT 22944 29 96.6 32 .................A........... ACCAGTTGTTTTCCCAGGTCAATAAACGTTGG 23005 29 100.0 32 ............................. ACTCAGGCTGGCGCGGCGCACGTCTGCCGGAA 23066 29 100.0 32 ............................. GTAACGTATTCATTACCGCATGACAAGCGGTT 23127 29 100.0 32 ............................. CATTGAATTGCGTCTCTGTTTTCTACCAATAC 23188 29 100.0 32 ............................. CCGGTCACGATTGTTCACCCCAAAAGCGGACA 23249 29 100.0 32 ............................. CTATCGGCAATTTGCATCAGGCCCATTGCAAT 23310 29 100.0 32 ............................. GGGGCCCATGTATGCGGATCGCGTAGAGTATC 23371 29 100.0 33 ............................. CTGGTGGGGCACTTCTGATATGAGAAGAGGGGG 23433 29 89.7 32 .G.GG........................ TAACGCAAAAATACCAGTTTATTATTGCTGCC 23494 29 100.0 32 ............................. CACTCTGCGTAATGGCAAATTCCAATTCTTTC 23555 29 100.0 32 ............................. CAGACAGTAAAAGTGAGGCAGCAGGGCGGAGC 23616 29 96.6 32 .............T............... ACTATTAACAATCTAGCGGGCGGTGAATGTGG 23677 29 96.6 32 .............T............... GTCAACGAGGGATTGAATTGGTGGTGTATTGG 23738 29 96.6 32 .............T............... AAAATTATTATTTTTGCAACTGCAATTCTGCT 23799 29 93.1 32 .............T.A............. GTTCGGTTCACATCAGGTCTGGGGGCTTACTA 23860 29 100.0 32 ............................. GTGAGCTCGGTTTTAATTTCGTCGCTAAGGTG 23921 29 100.0 33 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAAA 23983 29 86.2 0 TAA.........T................ | A [24007] ========== ====== ====== ====== ============================= ================================= ================== 24 29 98.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCGCCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCCTTGGGGGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGTGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGTTGCGGGAATGCCGTCATGGCCTGGGCGACTAACACGGAATCGGGATTTGAGTTTCAGACATGGGGTGAAAACCGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCTTATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGAGGAATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGGTTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [2-7] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //